Charlie16a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000091 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 342 |
| Kimura value | 28.92 |
| Tau index | 0.9515 |
| Description | hAT-Charlie DNA transposon, Charlie16a subfamily (non-autonomous) |
| Comment | 16 bp TIRs. |
| Sequence |
CAGTGCTTCTCAAACTGGGGTATGCGTACCCCTGGGGGTATGCAGTGGCAGAGGGGCAGTACGAAGCCACAGGATAAACATGGCGCATCTTCCTGGAGCATCAATTTTACTCGAAGATTTGGGGGGGAAACACATTATTTTTATATTAAAACAAACACGGATATATTATGGAGTAGAATGCAAAATTCGCATGAATTTTTAAGATAAAACANGAGACTTCAAAGAAATTTCGCGCTTGTGGCAGGGCTGCTTCGGGCTATGCCCCCAGACCCCCCGGGGGGTACGCGTTCACTCTCCTCTGCCGTTAGGGGTACTTCGGGTGGAAAAGTTTGAGAAGCACTG
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| Charlie16a | TFAP2C | 269 | 281 | - | 13.05 | CCCCCCGGGGGGT |
| Charlie16a | TFAP2C | 270 | 282 | + | 13.05 | CCCCCCGGGGGGT |
| Charlie16a | TFAP2A | 269 | 281 | - | 13.03 | CCCCCCGGGGGGT |
| Charlie16a | TFAP2A | 270 | 282 | + | 13.03 | CCCCCCGGGGGGT |
| Charlie16a | Hmga1 | 195 | 202 | + | 12.99 | ATTTTTAA |
| Charlie16a | Runx1 | 64 | 72 | - | 12.95 | CTGTGGCTT |
| Charlie16a | Ebf4 | 28 | 38 | - | 12.91 | CCCCCAGGGGT |
| Charlie16a | ZSCAN21 | 2 | 8 | - | 12.61 | AAGCACT |
| Charlie16a | ZSCAN21 | 335 | 341 | + | 12.61 | AAGCACT |
| Charlie16a | ZIC1 | 270 | 283 | - | 12.57 | TACCCCCCGGGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
